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mmu_circDcp1b_366
Basic information of circular RNA
PanCircBase ID:
mmu_circDcp1b_366
mm39_Chr. Position ID:
chr6|119157025|119177912|+
Gene name:
Dcp1b
Transcript:
ENSMUST00000112777.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,3585,18863,20757
Genomic length:
20887
Exon/intron sizes in nt:
41,128,67,130
Flanking exon/introns:
chr6:119152403-119157025|chr6:119177912-119183430
Splice length:
366
Other database IDs:
circBase: mmu_circ_0001512, CIRCpedia: MMU_CIRCpedia_4685, circAtlas: mmu-Dcp1b_0002
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAGACTGGAGTGGAGGGAACCTTGTTTGTTTATACGAGGTCTGCCTCCCCAAAGCACGGATTCACCATTATGAATAGGCTCAGCATGGAAAACAGAACAGAACCCATTACTAAAGACCTGGACTTCCAGCTCCAGAACCCTTTCCTTCTCTACAGAAACGGCACACTGTCCATTTATGGAATTTGGTTTTATGATAAGGAAGAGTGCCAGAGAATTGCAAAACTAATGAAAAACCTCACTCAGAGCGAACAGTTGAAAGCCTGTCATGGAGCCGGATCCTCCCCCGTGACCTTGAGCTCAGGAGAGGGCCAAGAAGTAGATATCCTGCAGATGCTCACCAAGGCCAAGGATGAGTACACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGACCTTGAGCTCAGGAG
60.11
TGAATCCGTGCTTTGGGGAG
60.32
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGACCTTGAGCTCAGGAG
60.11
GTGAATCCGTGCTTTGGGGA
60.61
147
PCR template sequence:
TCATGGAGCCGGATCCTCCCCCGTGACCTTGAGCTCAGGAGAGGGCCAAGAAGTAGATATCCTGCAGATGCTCACCAAGGCCAAGGATGAGTACACCAAGGAGAAGACTGGAGTGGAGGGAACCTTGTTTGTTTATACGAGGTCTGCCTCCCCAAAGCACGGATTCACCATTATGAATAGGCTCAGCATGGAAAACAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-495-3p(1), mmu-miR-362-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGTACACCAAGGAGAAGACTGGAG
siRNA sets
CTTCTCCTTGGTGTACTCA, TCTTCTCCTTGGTGTACTC, AGTCTTCTCCTTGGTGTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCP1B_366_ORF_1
1.0279
0.255947258
0.921328185
660
ORF sequence:
ATGAATAGGCTCAGCATGGAAAACAGAACAGAACCCATTACTAAAGACCTGGACTTCCAGCTCCAGAACCCTTTCCTTCTCTACAGAAACGGCACACTGTCCATTTATGGAATTTGGTTTTATGATAAGGAAGAGTGCCAGAGAATTGCAAAACTAATGAAAAACCTCACTCAGAGCGAACAGTTGAAAGCCTGTCATGGAGCCGGATCCTCCCCCGTGACCTTGAGCTCAGGAGAGGGCCAAGAAGTAGATATCCTGCAGATGCTCACCAAGGCCAAGGATGAGTACACCAAGGAGAAGACTGGAGTGGAGGGAACCTTGTTTGTTTATACGAGGTCTGCCTCCCCAAAGCACGGATTCACCATTATGAATAGGCTCAGCATGGAAAACAGAACAGAACCCATTACTAAAGACCTGGACTTCCAGCTCCAGAACCCTTTCCTTCTCTACAGAAACGGCACACTGTCCATTTATGGAATTTGGTTTTATGATAAGGAAGAGTGCCAGAGAATTGCAAAACTAATGAAAAACCTCACTCAGAGCGAACAGTTGAAAGCCTGTCATGGAGCCGGATCCTCCCCCGTGACCTTGAGCTCAGGAGAGGGCCAAGAAGTAGATATCCTGCAGATGCTCACCAAGGCCAAGGATGAGTACACCAAG
Peptide sequence:
MNRLSMENRTEPITKDLDFQLQNPFLLYRNGTLSIYGIWFYDKEECQRIAKLMKNLTQSEQLKACHGAGSSPVTLSSGEGQEVDILQMLTKAKDEYTKEKTGVEGTLFVYTRSASPKHGFTIMNRLSMENRTEPITKDLDFQLQNPFLLYRNGTLSIYGIWFYDKEECQRIAKLMKNLTQSEQLKACHGAGSSPVTLSSGEGQEVDILQMLTKAKDEYTK
IRESfinder result
IRESfinder score
0.646677608
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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